EP4107292A1 - Loop-mediated isothermal amplification primers for vibrio parahaemolyticus detection and uses thereof - Google Patents

Loop-mediated isothermal amplification primers for vibrio parahaemolyticus detection and uses thereof

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Publication number
EP4107292A1
EP4107292A1 EP21707031.7A EP21707031A EP4107292A1 EP 4107292 A1 EP4107292 A1 EP 4107292A1 EP 21707031 A EP21707031 A EP 21707031A EP 4107292 A1 EP4107292 A1 EP 4107292A1
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EP
European Patent Office
Prior art keywords
primer
homology
seq
parahaemolyticus
optionally
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Pending
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EP21707031.7A
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German (de)
French (fr)
Inventor
Tonya D. Bonilla
Neil Percy
Christina A. BARNES
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Neogen Food Safety US Holdco Corp
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3M Innovative Properties Co
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Filing date
Publication date
Application filed by 3M Innovative Properties Co filed Critical 3M Innovative Properties Co
Publication of EP4107292A1 publication Critical patent/EP4107292A1/en
Pending legal-status Critical Current

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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A50/00—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE in human health protection, e.g. against extreme weather
    • Y02A50/30—Against vector-borne diseases, e.g. mosquito-borne, fly-borne, tick-borne or waterborne diseases whose impact is exacerbated by climate change

Definitions

  • V. parahaemolyticus Some foodbome illnesses, such as vibriosis, are caused by Vibrio parahaemolyticus . Transmission of V. parahaemolyticus can occur through eating food, such as shellfish, that contains the microorganism.
  • Loop-mediated isothermal amplification is a method of amplifying DNA that has been described, for example, in W00028082, WOO 134790, and WOO 177317. Detection of amplified DNA has been performed with the Molecular Detection Kit available from 3M Company (St. Paul, MN).
  • LAMP is an acronym for loop-mediated isothermal amplification, a method of amplifying DNA that has been described, for example, in W00028082, W00134790, and WO0177317.
  • Detection of microorganisms can be accomplished by amplifying a segment of DNA that is specific to the type of microorganism to be detected followed by detection of the amplified DNA. If the DNA is present at detectable levels after amplification, this indicates the presence of the microorganism of interest. If no DNA is present, this indicates that the DNA of interest, and thus the microorganism of interest, was not present.
  • PCR is one well-recognized way to amplify DNA that relies on thermocycling
  • LAMP is another method for amplifying DNA. Unlike PCR, LAMP takes place at a constant elevated temperature, typically about 60° C, such as 50 ° C to 70 ° C, thus eliminating the need for thermocycling.
  • LAMP requires four different primers, although frequently six primers are used.
  • the required primers are two lamp primers and two displacement primers.
  • the optional primers are two loop primers.
  • the lamp primers have a 3’ segment that binds to a specific target sequence and a 5’ segment that is the reverse compliment to an internal target sequence.
  • Extension from a displacement primer generates a primary amplicon and formation of a self-priming loop structure.
  • the loop primers which are optional, bind within the loop structures to facilitate exponential amplification.
  • a primer set for amplification contains two lamp primers (known as LampF and LampB), two displacement primers (known as DisF and DisB), and optionally one or two loop primers (known as FoopF and LoopB).
  • each lamp primer does not exist in nature. This is because one end of each lamp primer is complementary to a segment of DNA on the forward strand of the template, and the other end of each lamp primer is complementary to a non-contiguous segment of DNA on the reverse strand of the template. Further, at least the 5’ primer or primer segment of each lamp primer is a reverse complement of the target DNA, which also does not exist in nature.
  • the DNA can be detected by a variety of methods, including the biolummescence in real time (BART) method.
  • BART biolummescence in real time
  • the 3M Molecular Detection System (available from 3M Company, St. Paul, MN, USA) is a commercially available system that uses BART to detect microorganisms after the portion of DNA of the microorganisms is amplified with FAMP.
  • a problem is that there are no known primers that can be used for LAMP amplification of a portion of V parahaemolyticus nuclear DNA that are unique and specific so as to be useful to identify the V. parahaemolyticus microorganism. Particularly the problem can be stated as how to identify any of the various strains of the V. parahaemolyticus microorganism while not obtaining a false positive by mistaking another species of Vibrio microorganism for the V parahaemolyticus microorganism. Another problem is that V parahaemolyticus bacteria are not currently detectable by way of LAMP amplification followed by a detection method.
  • primers for rapid amplification and detection such as times no more than 48 hours, no more than 24 hours, no more than 12 hours, no more than 6 hours, no more than 4 hours, no more than 2 hours, no more than 90 minutes, or even no more than 60 minutes, are not available.
  • Another problem is identifying a suitable gene for the specific detection of V. parahaemolyticus without detecting other Vibrio species.
  • Another problem is finding a use of the VP175 gene, particularly for detection of V parahaemolyticu . This gene is not known as a target for V parahaemolyticus detection.
  • a related problem is finding a LAMP primer set that detects targets on the VP 175 gene of V parahaemolyticus .
  • this disclosure provides primers that are useable for amplification of V. parahaemolyticus by LAMP methodology.
  • the primers may particularly detect the VP175 gene of V parahaemolyticus.
  • a primer set for V parahaemolyticus can include a Lamp primer, particularly the V parahaemolyticus LampF primer having SEQ ID NO: 1.
  • the V parahaemolyticus LampF primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 1
  • Any suitable displacement primer for V parahaemolyticus can be used in the primer set along with the aforementioned LampF primer.
  • One suitable displacement primer is the V parahaemolyticus DisF primer having the sequence of SEQ ID NO: 2.
  • V parahaemolyticus DisF primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 2.
  • other displacement primers could be used with the Lamp primer, such as the Lamp primer discussed above.
  • the disclosed primer set for V parahaemolyticus can optionally include a suitable loop primer.
  • One suitable loop primer is the V. parahaemolyticus LoopF primer having the sequence of SEQ ID NO: 2.
  • the V parahaemolyticus LoopF primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 3. In principle, other loop primers could be used.
  • a primer set for V parahaemolyticus can include, typically in addition to but in some cases as an alternative, to the V parahaemolyticus LampF primer discussed above, the V. parahaemolyticus LampB primer having the sequence of SEQ ID NO: 4.
  • the V. parahaemolyticus LampB primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 4.
  • Any suitable displacement primer for V. parahaemolyticus can be used in the primer set along with one or both of the aforementioned lamp primers, that is, with the V. parahaemolyticus LampF primer, the V parahaemolyticus LampB primer, or both the V. parahaemolyticus LampF primer and the V. parahaemolyticus LampB primer.
  • One suitable displacement primer is the V parahaemolyticus DisB primer having the sequence of SEQ ID NO: 5.
  • the V. parahaemolyticus DisB primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO:
  • a primer set for V. parahaemolyticus can optionally include a suitable loop primer.
  • One suitable loop primer is the stxl all var LoopB primer having the sequence of SEQ ID NO: 6.
  • the stxl all var LoopB primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO:
  • Any primer set as described herein can be in the form of a lyophilized pellet or powder, which can optionally contain other materials.
  • examples of other materials that can be included in the lyophilized pellet or powder include sugars, such as glucose, lyophilization aids, preservatives, antioxidants, and the like.
  • any of the aforementioned primer sets can be used in a method of amplifying target DNA.
  • the target DNA is exposed to any of the aforementioned primer sets of any of the preceding claims under conditions that are suitable for amplification of the target DNA.
  • the target DNA is typically DNA of the V. parahaemolyticus organism, and particularly DNA from VP 175 gene of the V parahaemolyticus. While conditions that are suitable for amplification of target DNA with primers are known or readily determined by the skilled artisan, particular conditions that may be used include a temperature of 50 ° C to 70 ° C.
  • the method can further comprise detecting the target DNA.
  • Methods of detecting target DNA are known.
  • One exemplary method entails the use of the 3M Molecular Detection System. Other methods may also be employed.
  • LAMP primer design Regions amenable for LAMP primer design were identified and further verified for specificity by BLAST analysis against the NCBI non-redundant (nr/nt) nucleotide database.
  • a set of LAMP primers designed to detect the VP175 gene is shown in Table 2.
  • the cultures identified in Table 3 were obtained from either the BEI Resources Repository (BEI) or the American Type Culture Center (ATCC) and were propagated by streaking a frozen culture onto a tryptic soy agar plate and incubating the plate for 24 hours at 32° C. Colonies were suspended into 10 mL of buffered peptone water (available as BPW-ISO from 3M Company, St. Paul, MN, US) broth with a 10 pL inoculation loop Cultures were grown for 18 hours at 32° C and were visibly turbid after incubation.
  • BEI BEI Resources Repository
  • ATCC American Type Culture Center
  • cultures were diluted to 1c10 L 6 CFU/mL into BPW-ISO. 20 pL of each dilution was dispensed into lysis buffer (commercially available from 3M Company as part of the 3MTM Molecular Detection Assay 2 - cronobacter kit.) Samples were heated to 100° C for 15 minutes then colled for 5 minutes. 20 pL of each sample was then dispensed into 3MTM Molecular Detection Assay 2 - cronobacter kit reagent tubes.
  • lysis buffer commercially available from 3M Company as part of the 3MTM Molecular Detection Assay 2 - cronobacter kit.
  • Tests to determine the presence of each sample were performed using the 3MTM Molecular Detection System 2 instrument for 60 minutes at 60° C. The results are shown in Table 3, where a positive outcome means that the test indicated the presence of the organism and a negative outcome means that the test indicated the absence of the organism.

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Abstract

Primers and primer sets for amplification of Vibrio parahaemolyticus DNA and methods of detecting Vibrio parahaemolyticus using the primers and primer sets.

Description

LOOP-MEDIATED ISOTHERMAL AMPLIFICATION PRIMERS FOR VIBRIO PARAHAEMOLYTICUS DETECTION AND USES THEREOF
SEQUENCE LISTING
This application contains a Sequence listing electronically submitted via EFS-Web to the United States Patent and Trademark Office as an ASCII text file entitled “82721WO003_ST25.txt” having a size of 1.26 kilobytes and created on December 15, 2020. The information contained in the Sequence Listing is incorporated by reference herein.
BACKGROUND
Some foodbome illnesses, such as vibriosis, are caused by Vibrio parahaemolyticus . Transmission of V. parahaemolyticus can occur through eating food, such as shellfish, that contains the microorganism.
Loop-mediated isothermal amplification (LAMP) is a method of amplifying DNA that has been described, for example, in W00028082, WOO 134790, and WOO 177317. Detection of amplified DNA has been performed with the Molecular Detection Kit available from 3M Company (St. Paul, MN).
DETAILED DESCRIPTION
Throughout this disclosure, singular forms such as “a,” “an,” and “the” are often used for convenience; however, the singular forms are meant to include the plural unless the singular alone is explicitly specified or is clearly indicated by the context. When the singular alone is called for, the term “one and only one” is typically used.
Some terms in this disclosure are defined below. Other terms will be familiar to the person of skill in the art and should be afforded the meaning that a person of ordinary skill in the art would have ascribed to them.
The terms “common,” “typical,” and “usual,” as well as “commonly,” “typically,” and “usually” are used herein to refer to features that are often employed in the invention and, unless specifically used with reference to the prior art, are not intended to mean that the features are present in the prior art, much less that those features are common, usual, or typical in the prior art.
The term “LAMP” is an acronym for loop-mediated isothermal amplification, a method of amplifying DNA that has been described, for example, in W00028082, W00134790, and WO0177317. Detection of microorganisms can be accomplished by amplifying a segment of DNA that is specific to the type of microorganism to be detected followed by detection of the amplified DNA. If the DNA is present at detectable levels after amplification, this indicates the presence of the microorganism of interest. If no DNA is present, this indicates that the DNA of interest, and thus the microorganism of interest, was not present. PCR is one well-recognized way to amplify DNA that relies on thermocycling LAMP is another method for amplifying DNA. Unlike PCR, LAMP takes place at a constant elevated temperature, typically about 60° C, such as 50 ° C to 70 ° C, thus eliminating the need for thermocycling.
Briefly, LAMP requires four different primers, although frequently six primers are used. The required primers are two lamp primers and two displacement primers. The optional primers are two loop primers. The lamp primers have a 3’ segment that binds to a specific target sequence and a 5’ segment that is the reverse compliment to an internal target sequence. Extension from a displacement primer generates a primary amplicon and formation of a self-priming loop structure. The loop primers, which are optional, bind within the loop structures to facilitate exponential amplification. A primer set for amplification contains two lamp primers (known as LampF and LampB), two displacement primers (known as DisF and DisB), and optionally one or two loop primers (known as FoopF and LoopB).
Of the primers in each primer set, at least the two lamp primers do not exist in nature. This is because one end of each lamp primer is complementary to a segment of DNA on the forward strand of the template, and the other end of each lamp primer is complementary to a non-contiguous segment of DNA on the reverse strand of the template. Further, at least the 5’ primer or primer segment of each lamp primer is a reverse complement of the target DNA, which also does not exist in nature.
Once amplified, the DNA can be detected by a variety of methods, including the biolummescence in real time (BART) method. The 3M Molecular Detection System (available from 3M Company, St. Paul, MN, USA) is a commercially available system that uses BART to detect microorganisms after the portion of DNA of the microorganisms is amplified with FAMP.
A problem is that there are no known primers that can be used for LAMP amplification of a portion of V parahaemolyticus nuclear DNA that are unique and specific so as to be useful to identify the V. parahaemolyticus microorganism. Particularly the problem can be stated as how to identify any of the various strains of the V. parahaemolyticus microorganism while not obtaining a false positive by mistaking another species of Vibrio microorganism for the V parahaemolyticus microorganism. Another problem is that V parahaemolyticus bacteria are not currently detectable by way of LAMP amplification followed by a detection method. More particularly, primers for rapid amplification and detection, such as times no more than 48 hours, no more than 24 hours, no more than 12 hours, no more than 6 hours, no more than 4 hours, no more than 2 hours, no more than 90 minutes, or even no more than 60 minutes, are not available. Another problem is identifying a suitable gene for the specific detection of V. parahaemolyticus without detecting other Vibrio species. Another problem is finding a use of the VP175 gene, particularly for detection of V parahaemolyticu . This gene is not known as a target for V parahaemolyticus detection. A related problem is finding a LAMP primer set that detects targets on the VP 175 gene of V parahaemolyticus .
Briefly, as solution to one or more of these problems, and some other problems, this disclosure provides primers that are useable for amplification of V. parahaemolyticus by LAMP methodology. The primers may particularly detect the VP175 gene of V parahaemolyticus.
A primer set for V parahaemolyticus can include a Lamp primer, particularly the V parahaemolyticus LampF primer having SEQ ID NO: 1. Optionally, the V parahaemolyticus LampF primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 1
Any suitable displacement primer for V parahaemolyticus can be used in the primer set along with the aforementioned LampF primer. One suitable displacement primer is the V parahaemolyticus DisF primer having the sequence of SEQ ID NO: 2. Optionally, V parahaemolyticus DisF primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 2. In principle other displacement primers could be used with the Lamp primer, such as the Lamp primer discussed above.
The disclosed primer set for V parahaemolyticus can optionally include a suitable loop primer. One suitable loop primer is the V. parahaemolyticus LoopF primer having the sequence of SEQ ID NO: 2. Optionally, the V parahaemolyticus LoopF primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 3. In principle, other loop primers could be used.
A primer set for V parahaemolyticus can include, typically in addition to but in some cases as an alternative, to the V parahaemolyticus LampF primer discussed above, the V. parahaemolyticus LampB primer having the sequence of SEQ ID NO: 4. Optionally, the V. parahaemolyticus LampB primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO: 4.
Any suitable displacement primer for V. parahaemolyticus can be used in the primer set along with one or both of the aforementioned lamp primers, that is, with the V. parahaemolyticus LampF primer, the V parahaemolyticus LampB primer, or both the V. parahaemolyticus LampF primer and the V. parahaemolyticus LampB primer. One suitable displacement primer is the V parahaemolyticus DisB primer having the sequence of SEQ ID NO: 5. Optionally, the V. parahaemolyticus DisB primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO:
5. In principle, other displacement primers could be used.
A primer set for V. parahaemolyticus can optionally include a suitable loop primer. One suitable loop primer is the stxl all var LoopB primer having the sequence of SEQ ID NO: 6. Optionally, the stxl all var LoopB primer can have a sequence that has at least 99% homology, at least 95% homology, at least 90% homology, at least 85% homology, or at least 80% homology to SEQ ID NO:
6. In principle, other loop primers could be used.
A summary of the primers and primer sets disclosed herein can be found in Table 1.
Table 1 Any primer set as described herein can be in the form of a lyophilized pellet or powder, which can optionally contain other materials. Examples of other materials that can be included in the lyophilized pellet or powder include sugars, such as glucose, lyophilization aids, preservatives, antioxidants, and the like.
In use, any of the aforementioned primer sets can be used in a method of amplifying target DNA.
In such a method, the target DNA is exposed to any of the aforementioned primer sets of any of the preceding claims under conditions that are suitable for amplification of the target DNA. The target DNA is typically DNA of the V. parahaemolyticus organism, and particularly DNA from VP 175 gene of the V parahaemolyticus. While conditions that are suitable for amplification of target DNA with primers are known or readily determined by the skilled artisan, particular conditions that may be used include a temperature of 50° C to 70° C.
The method can further comprise detecting the target DNA. Methods of detecting target DNA are known. One exemplary method entails the use of the 3M Molecular Detection System. Other methods may also be employed.
Examples
Bioinformatics and Primer Design
Available complete genomes from NCBI (National Center for Biotechnology Information) were compiled and whole genome alignments were performed using the progressiveMauve algorithm of Mauve genome aligner, one chromosome/replicon at a time. The alignments were manually scanned for orthologous genes with moderate to high level of conservation based on similarity plots generated by Mauve.
Selected genes were searched against the NCBI nucleotide collection (nr/nt) using the BLAST (Basic Local Alignment Search Tool) algorithm for comparing primary biological sequence information. Percent nucleic acid identity was determined to the worst inclusive match and best inclusive match over 100% coverage. Multiple sequence alignments using Clustal W in BioEdit were generated for the highest scoring gene candidates. All available Vibrio parahaemolyticus sequences from the NCBI nr/nt and refseq genomic databases were included in the alignment
Regions amenable for LAMP primer design were identified and further verified for specificity by BLAST analysis against the NCBI non-redundant (nr/nt) nucleotide database. A set of LAMP primers designed to detect the VP175 gene is shown in Table 2.
Table 2 Culture Method
The cultures identified in Table 3 were obtained from either the BEI Resources Repository (BEI) or the American Type Culture Center (ATCC) and were propagated by streaking a frozen culture onto a tryptic soy agar plate and incubating the plate for 24 hours at 32° C. Colonies were suspended into 10 mL of buffered peptone water (available as BPW-ISO from 3M Company, St. Paul, MN, US) broth with a 10 pL inoculation loop Cultures were grown for 18 hours at 32° C and were visibly turbid after incubation.
After incubation, cultures were diluted to 1c10L6 CFU/mL into BPW-ISO. 20 pL of each dilution was dispensed into lysis buffer (commercially available from 3M Company as part of the 3M™ Molecular Detection Assay 2 - cronobacter kit.) Samples were heated to 100° C for 15 minutes then colled for 5 minutes. 20 pL of each sample was then dispensed into 3M™ Molecular Detection Assay 2 - cronobacter kit reagent tubes.
2 pL of a mixture of a lOx primer mix with 4 mM MgS04 (New England Biolobs, Ipswich, MA, US) was added to the reagent tube and mixed up and down five times with a multichannel pipette. In each tube, the final concentration of each LAMP primer was 0.8 pL; the final concentration of each LOOP primer was 0.4 pL; the final concentration of each DIS primer was 0.2 pL; and the final concentration of MgSOi was 0.4 mM.
Tests to determine the presence of each sample were performed using the 3M™ Molecular Detection System 2 instrument for 60 minutes at 60° C. The results are shown in Table 3, where a positive outcome means that the test indicated the presence of the organism and a negative outcome means that the test indicated the absence of the organism.
Table 3

Claims

What is claimed is:
1. A primer set comprising a primer having at least 80% homology to SEQ ID NO: 1, a primer having at least 80% homology to SEQ ID NO: 4, or both a primer having at least 80% homology to SEQ ID NO: 1 and a primer having at least 80% homology to SEQ ID NO: 4.
2. The primer set of claim 1, wherein the primer has at least 85%, optionally at least 90%, or optionally at least 95% homology to SEQ ID NO: 1.
3. The primer set of any of the preceding claims, comprising a primer of SEQ ID NO:l.
4. The primer set of any of the preceding claims, wherein the primer has at least 85%, optionally at least 90%, or optionally at least 95% homology to SEQ ID NO: 4.
5. The primer set of any of the preceding claims, comprising a primer of SEQ ID NO: 4.
6. The primer set of any of the preceding claims, further comprising a primer having least 80% homology, 85%, optionally at least 90%, or optionally at least 95% homology to SEQ ID NO: 2.
7. The primer set of any of the preceding claims, comprising a primer having SEQ ID NO: 2.
8. The primer set of any of the preceding claims, further comprising a primer having least 80% homology, 85%, optionally at least 90%, or optionally at least 95% homology to SEQ ID NO: 3.
9. The primer set of any of the preceding claims, comprising a primer having SEQ ID NO: 3.
10. The primer set of any of the preceding claims, further comprising a primer having least 80% homology, 85%, optionally at least 90%, or optionally at least 95% homology to SEQ ID NO: 5.
11. The primer set of any of the preceding claims, comprising a primer having SEQ ID NO: 5.
12. The primer set of any of the preceding claims, further comprising a pnmer having least 80% homology, 85%, optionally at least 90%, or optionally at least 95% homology to SEQ ID NO: 6.
13. The primer set of any of the preceding claims, comprising a primer having SEQ ID NO: 6.
14. A powder comprising a primer set of any of the preceding claims.
15. The powder of claim 14, wherein the powder is lyophilized.
16. A pellet comprising a primer set of any of claims 1-13 or a powder of any of claims 14-15.
17. The pellet of claim 16, wherein the pellet is lyophilized.
18. A method of amplifying target DNA comprising exposing the target DNA to a primer set of any of the preceding claims under conditions that are suitable for amplification of the target DNA.
19. The method of embodiment 18, wherein the conditions include a temperature of 50° C to 70° C.
20. The method of any of claims 18-19, further comprising detecting the presence of amplified target DNA.
21. The method of any of claims 18-20, wherein the target DNA is DNA of V. parahaemolyticus .
22. The method of any of claims 18-21, wherein the target DNA is DNA of the YP175 gene of V. parahaemolyticus .
EP21707031.7A 2020-02-17 2021-02-16 Loop-mediated isothermal amplification primers for vibrio parahaemolyticus detection and uses thereof Pending EP4107292A1 (en)

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